Query 031145
Match_columns 165
No_of_seqs 68 out of 70
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 09:52:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031145.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031145hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11016 DUF2854: Protein of u 99.9 2E-28 4.3E-33 195.3 2.7 61 102-164 1-63 (147)
2 PF02392 Ycf4: Ycf4; InterPro 65.2 9.5 0.00021 32.1 3.9 51 84-134 14-77 (180)
3 PLN03094 Substrate binding sub 63.9 9.2 0.0002 34.8 3.8 33 77-109 74-107 (370)
4 PF11381 DUF3185: Protein of u 61.2 15 0.00032 25.8 3.7 46 88-134 3-58 (59)
5 PF02038 ATP1G1_PLM_MAT8: ATP1 57.7 7 0.00015 27.0 1.5 31 77-107 3-33 (50)
6 PF12750 Maff2: Maff2 family; 53.7 6.6 0.00014 28.9 0.9 28 88-115 11-42 (70)
7 COG4858 Uncharacterized membra 52.6 17 0.00038 31.6 3.5 37 90-134 100-141 (226)
8 PRK10692 hypothetical protein; 52.3 18 0.00038 27.9 3.1 37 88-127 9-47 (92)
9 PRK01637 hypothetical protein; 51.4 16 0.00035 30.7 3.1 39 75-113 193-231 (286)
10 PF04650 YSIRK_signal: YSIRK t 50.5 13 0.00028 22.6 1.7 22 79-100 5-26 (27)
11 PF12389 Peptidase_M73: Camely 48.4 5.7 0.00012 33.7 -0.1 33 83-115 6-38 (199)
12 PF05915 DUF872: Eukaryotic pr 48.3 24 0.00052 27.3 3.3 28 83-110 41-68 (115)
13 PRK09546 zntB zinc transporter 44.1 33 0.00072 29.1 3.8 12 123-134 298-309 (324)
14 TIGR01168 YSIRK_signal Gram-po 42.7 25 0.00055 22.7 2.3 25 79-103 9-33 (39)
15 PF11384 DUF3188: Protein of u 40.2 33 0.00071 23.2 2.6 36 96-131 3-39 (49)
16 PF09656 PGPGW: Putative trans 38.9 45 0.00098 23.0 3.2 41 91-142 3-43 (53)
17 PF04156 IncA: IncA protein; 38.1 40 0.00086 26.2 3.2 16 91-106 10-25 (191)
18 PF00361 Oxidored_q1: NADH-Ubi 36.9 58 0.0013 26.4 4.1 47 92-138 41-95 (270)
19 PF12666 PrgI: PrgI family pro 36.3 45 0.00099 23.4 3.0 55 78-133 10-65 (93)
20 PF11286 DUF3087: Protein of u 36.3 63 0.0014 26.9 4.2 41 93-133 26-68 (165)
21 PF07613 DUF1576: Protein of u 35.0 30 0.00066 29.0 2.2 31 93-133 64-94 (183)
22 PF10762 DUF2583: Protein of u 34.7 46 0.00099 25.6 2.9 36 88-126 9-46 (89)
23 PRK04214 rbn ribonuclease BN/u 32.7 53 0.0011 29.3 3.5 53 75-129 200-253 (412)
24 PRK02542 photosystem I assembl 32.5 83 0.0018 26.9 4.4 61 74-134 11-84 (188)
25 COG5446 Predicted integral mem 32.5 2E+02 0.0042 25.4 6.7 57 66-125 55-112 (233)
26 PRK09400 secE preprotein trans 32.2 38 0.00082 23.7 2.0 21 89-109 33-53 (61)
27 PF10661 EssA: WXG100 protein 31.9 37 0.0008 27.1 2.1 20 89-108 119-138 (145)
28 PF09813 Coiled-coil_56: Coile 31.2 38 0.00082 26.4 2.0 24 84-107 45-68 (100)
29 PF10003 DUF2244: Integral mem 31.2 72 0.0016 24.6 3.6 21 117-137 36-56 (140)
30 PRK10535 macrolide transporter 30.5 50 0.0011 31.0 3.1 11 133-143 633-643 (648)
31 CHL00036 ycf4 photosystem I as 30.3 72 0.0016 27.1 3.7 51 83-133 16-79 (184)
32 TIGR00765 yihY_not_rbn YihY fa 30.0 53 0.0012 27.0 2.8 39 75-113 183-221 (259)
33 TIGR00327 secE_euk_arch protei 29.6 44 0.00096 23.5 2.0 21 89-109 29-49 (61)
34 PF11127 DUF2892: Protein of u 29.5 90 0.002 20.8 3.4 35 93-132 14-48 (66)
35 PF08452 DNAP_B_exo_N: DNA pol 28.1 27 0.00058 20.8 0.6 17 8-24 4-20 (22)
36 PF11241 DUF3043: Protein of u 26.9 52 0.0011 27.3 2.3 43 84-129 73-115 (170)
37 TIGR03068 srtB_sig_NPQTN sorta 26.8 55 0.0012 21.1 1.9 19 111-129 1-19 (33)
38 PF06168 DUF981: Protein of un 26.8 69 0.0015 27.0 3.0 15 93-107 78-92 (191)
39 PF11947 DUF3464: Protein of u 26.0 79 0.0017 25.8 3.1 14 36-49 3-16 (153)
40 PF07444 Ycf66_N: Ycf66 protei 25.4 83 0.0018 23.5 2.9 39 93-131 9-55 (84)
41 COG1030 NfeD Membrane-bound se 24.5 38 0.00083 32.0 1.2 39 94-140 262-300 (436)
42 PF01618 MotA_ExbB: MotA/TolQ/ 23.6 90 0.002 23.5 2.9 17 88-104 68-84 (139)
43 TIGR00383 corA magnesium Mg(2+ 23.5 1.2E+02 0.0025 25.3 3.8 16 119-134 288-303 (318)
44 PF06770 Arif-1: Actin-rearran 22.6 1.1E+02 0.0024 26.1 3.5 40 94-133 7-57 (196)
45 PF14927 Neurensin: Neurensin 22.5 49 0.0011 26.7 1.3 21 85-105 47-67 (140)
46 PF13038 DUF3899: Domain of un 22.4 99 0.0021 21.8 2.7 36 89-128 2-37 (92)
47 TIGR03063 srtB_target sortase 22.1 1E+02 0.0022 19.2 2.3 23 112-134 2-24 (29)
48 PRK11462 putative transporter; 21.2 54 0.0012 28.8 1.4 14 116-129 402-416 (460)
49 PF03631 Virul_fac_BrkB: Virul 20.1 1.4E+02 0.003 24.1 3.5 38 75-112 183-220 (260)
No 1
>PF11016 DUF2854: Protein of unknown function (DUF2854); InterPro: IPR021275 This family of proteins has no known function.
Probab=99.94 E-value=2e-28 Score=195.26 Aligned_cols=61 Identities=51% Similarity=0.745 Sum_probs=58.2
Q ss_pred hhhhhhhccCCCCcchhhhhhhhhhHHHHHhhhhccccCCCC--CCCchHHHHHHhhcCCccccc
Q 031145 102 YGFGAYFSIFPGSEWSALMLTYGFPLAVIGMALKYAELKPVP--CLTYSDAQSLRETCATPILKQ 164 (165)
Q Consensus 102 vGf~AYft~~p~anLSl~gfFYGiPIlLgGLALK~AELkPvp--~~T~~~alalRe~qAT~~q~Q 164 (165)
|||+|||+++++ ||++||||||||+||||||||||||||| |.|+++++++||+|||+||+|
T Consensus 1 ~Gf~aY~~~~a~--lsl~~ffYGiPilLgGlALK~aEL~Pvp~~~~~~~~~~~lRe~qat~~~~q 63 (147)
T PF11016_consen 1 IGFVAYFTDNAN--LSLPGFFYGIPILLGGLALKYAELKPVPFSCTTSPEALALREQQATPTQNQ 63 (147)
T ss_pred CceeEEecCCCc--eeeehHHhhhHHHHHHHHHHHhcCCCCCcccCCHHHHHHHHHhcCCHHHHH
Confidence 699999998555 9999999999999999999999999999 889999999999999999987
No 2
>PF02392 Ycf4: Ycf4; InterPro: IPR003359 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA (IPR005137 from INTERPRO) [], Ycf3 [, ], and Ycf4 []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions. ; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009579 thylakoid, 0016021 integral to membrane
Probab=65.24 E-value=9.5 Score=32.07 Aligned_cols=51 Identities=24% Similarity=0.337 Sum_probs=35.9
Q ss_pred eccc---chhhhHhHHHHHHHhhhhhhhccC--CC---Ccc-----hhhhhhhhhhHHHHHhhh
Q 031145 84 AKVS---FGVIGLGLGISLLSYGFGAYFSIF--PG---SEW-----SALMLTYGFPLAVIGMAL 134 (165)
Q Consensus 84 ~k~S---lGsLgl~vG~iLtvvGf~AYft~~--p~---anL-----Sl~gfFYGiPIlLgGLAL 134 (165)
|++| .+.+++.-|.-.+.+|+-.|+..| |- .++ -++|.|||+-=++.++=|
T Consensus 14 Rr~SN~~wa~ii~~G~lGFll~G~sSYl~~nll~~~~~~~i~FiPQGivM~FYGi~gl~ls~Yl 77 (180)
T PF02392_consen 14 RRFSNYFWAFIIFLGGLGFLLVGISSYLGKNLLPFSDSSQIPFIPQGIVMCFYGIAGLFLSFYL 77 (180)
T ss_pred chHHHHHHHHHHHHhhHHHHHhHHHHHhCCCccccCCcceeeEECccHHHHHHHHHHHHHHHHH
Confidence 4455 567777778889999999999654 11 011 367999999877777644
No 3
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=63.88 E-value=9.2 Score=34.81 Aligned_cols=33 Identities=27% Similarity=0.090 Sum_probs=19.0
Q ss_pred cCCCceeecccchhhhH-hHHHHHHHhhhhhhhc
Q 031145 77 PDDEFTLAKVSFGVIGL-GLGISLLSYGFGAYFS 109 (165)
Q Consensus 77 ~d~~f~l~k~SlGsLgl-~vG~iLtvvGf~AYft 109 (165)
.|=+|--|.+--|.+|+ ++++++++++++.|+.
T Consensus 74 ~~~~~~rrsvrEg~VGlfvL~gi~ll~~~~~~L~ 107 (370)
T PLN03094 74 SDFGFGKRSVWEGGVGLFLLSGAALLALTLAWLR 107 (370)
T ss_pred hhcCCcchhHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 45667667666677766 3444444445555543
No 4
>PF11381 DUF3185: Protein of unknown function (DUF3185); InterPro: IPR021521 Some members in this bacterial family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Probab=61.24 E-value=15 Score=25.81 Aligned_cols=46 Identities=30% Similarity=0.348 Sum_probs=32.6
Q ss_pred chhhhHhHHHHHHHhhhhhhhc----------cCCCCcchhhhhhhhhhHHHHHhhh
Q 031145 88 FGVIGLGLGISLLSYGFGAYFS----------IFPGSEWSALMLTYGFPLAVIGMAL 134 (165)
Q Consensus 88 lGsLgl~vG~iLtvvGf~AYft----------~~p~anLSl~gfFYGiPIlLgGLAL 134 (165)
+|-+++++|.+|..+|.-+|-+ +.|+ +=....++=|.--.+.|+.+
T Consensus 3 igi~Llv~GivLl~~G~~~~~S~~s~~s~~~TG~~t-~~t~~~ligG~va~ivGl~~ 58 (59)
T PF11381_consen 3 IGIALLVGGIVLLYFGYQASDSLGSQVSRAFTGSPT-DKTIWYLIGGAVAVIVGLFL 58 (59)
T ss_pred eeehHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCCC-chhHHHHHhHHHHHHHHHhh
Confidence 3557889999999999988744 4443 44556666677777777764
No 5
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=57.72 E-value=7 Score=27.02 Aligned_cols=31 Identities=23% Similarity=0.209 Sum_probs=26.8
Q ss_pred cCCCceeecccchhhhHhHHHHHHHhhhhhh
Q 031145 77 PDDEFTLAKVSFGVIGLGLGISLLSYGFGAY 107 (165)
Q Consensus 77 ~d~~f~l~k~SlGsLgl~vG~iLtvvGf~AY 107 (165)
+||+|.-+.=|+-.-|++.+++|.++|.+--
T Consensus 3 e~~pF~YDy~tLrigGLi~A~vlfi~Gi~ii 33 (50)
T PF02038_consen 3 EDDPFYYDYETLRIGGLIFAGVLFILGILII 33 (50)
T ss_dssp CCSGGGGCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCCccchhHhhccchHHHHHHHHHHHHHH
Confidence 4688999999999999999999999998643
No 6
>PF12750 Maff2: Maff2 family; InterPro: IPR024272 This family of short membrane proteins are related to the protein Maff2. Maff2 lies just outside the direct repeats of a tetracycline resistance transposable element. This protein family may contain transmembrane helices.
Probab=53.72 E-value=6.6 Score=28.89 Aligned_cols=28 Identities=25% Similarity=0.375 Sum_probs=23.9
Q ss_pred chhhhHhHHHHHHHhhhh----hhhccCCCCc
Q 031145 88 FGVIGLGLGISLLSYGFG----AYFSIFPGSE 115 (165)
Q Consensus 88 lGsLgl~vG~iLtvvGf~----AYft~~p~an 115 (165)
+-+++..+|+-|-+||.+ +|-+|||+++
T Consensus 11 LktlV~alGaGLgvWGviNLlEGYGnDNpgak 42 (70)
T PF12750_consen 11 LKTLVVALGAGLGVWGVINLLEGYGNDNPGAK 42 (70)
T ss_pred HHHHHHHHccchhhhhhhhhhhhcCCCCcchh
Confidence 567888999999999987 7899999854
No 7
>COG4858 Uncharacterized membrane-bound protein conserved in bacteria [Function unknown]
Probab=52.59 E-value=17 Score=31.64 Aligned_cols=37 Identities=32% Similarity=0.341 Sum_probs=28.3
Q ss_pred hhhHhHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHH-----HHHhhh
Q 031145 90 VIGLGLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLA-----VIGMAL 134 (165)
Q Consensus 90 sLgl~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIl-----LgGLAL 134 (165)
+-++.+|.+-++-|..+||+.++. .||+.-+ .||+|+
T Consensus 100 ssLl~lg~~aLlsgitaff~~nA~--------~~GlItlll~a~vgGfam 141 (226)
T COG4858 100 SSLLFLGAMALLSGITAFFQKNAQ--------VYGLITLLLTAVVGGFAM 141 (226)
T ss_pred ccHHHHHHHHHHHHHHHHHhcCCc--------chhHHHHHHHHHhhhHHH
Confidence 446889999999999999998765 5666544 467765
No 8
>PRK10692 hypothetical protein; Provisional
Probab=52.35 E-value=18 Score=27.92 Aligned_cols=37 Identities=22% Similarity=0.406 Sum_probs=28.1
Q ss_pred chhhhHhHHHHHHHhhhhhh--hccCCCCcchhhhhhhhhhH
Q 031145 88 FGVIGLGLGISLLSYGFGAY--FSIFPGSEWSALMLTYGFPL 127 (165)
Q Consensus 88 lGsLgl~vG~iLtvvGf~AY--ft~~p~anLSl~gfFYGiPI 127 (165)
+||++.++|.++.+.|+ +| ++..|. |+++.|++..-|
T Consensus 9 ~GN~lMglGmv~Mv~gi-gysi~~~i~~--L~Lp~~~~~gal 47 (92)
T PRK10692 9 LGNVLMGLGLVVMVVGV-GYSILNQLPQ--LNLPQFFAHGAL 47 (92)
T ss_pred HhhHHHHHHHHHHHHHH-HHHHHHhccc--CCchHHHHhhHH
Confidence 79999999999887765 55 466666 888888776543
No 9
>PRK01637 hypothetical protein; Reviewed
Probab=51.41 E-value=16 Score=30.69 Aligned_cols=39 Identities=26% Similarity=0.501 Sum_probs=33.2
Q ss_pred eecCCCceeecccchhhhHhHHHHHHHhhhhhhhccCCC
Q 031145 75 LVPDDEFTLAKVSFGVIGLGLGISLLSYGFGAYFSIFPG 113 (165)
Q Consensus 75 ~v~d~~f~l~k~SlGsLgl~vG~iLtvvGf~AYft~~p~ 113 (165)
+.|+.....+.+-+|.+.+.++-.+.-++|.-|.+..++
T Consensus 193 ~~P~~k~~~r~~~~Ga~~a~~~w~~~~~~f~~Yv~~~~~ 231 (286)
T PRK01637 193 VVPNKKVPFRHALVGALVAALLFELGKKGFALYITTFPS 231 (286)
T ss_pred hcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 456666778888999999999999999999999987554
No 10
>PF04650 YSIRK_signal: YSIRK type signal peptide; InterPro: IPR005877 Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. ; GO: 0016020 membrane
Probab=50.50 E-value=13 Score=22.61 Aligned_cols=22 Identities=23% Similarity=0.532 Sum_probs=17.8
Q ss_pred CCceeecccchhhhHhHHHHHH
Q 031145 79 DEFTLAKVSFGVIGLGLGISLL 100 (165)
Q Consensus 79 ~~f~l~k~SlGsLgl~vG~iLt 100 (165)
.-|.+||+|.|..=..+|..+.
T Consensus 5 ~rysIRK~svGv~SV~ig~~~~ 26 (27)
T PF04650_consen 5 QRYSIRKLSVGVASVLIGTLFF 26 (27)
T ss_pred cEEeEEccccchhHHHHHHHHh
Confidence 4689999999988888877654
No 11
>PF12389 Peptidase_M73: Camelysin metallo-endopeptidase; InterPro: IPR022121 Camelysin is a novel surface metallopeptidase from Bacillus cereus []. Camelysin prefers cleavage sites in front of aliphatic and hydrophilic amino acid residues (-OH, -SO3H, amido group), and requires zinc for activity [, ].
Probab=48.44 E-value=5.7 Score=33.67 Aligned_cols=33 Identities=33% Similarity=0.418 Sum_probs=24.5
Q ss_pred eecccchhhhHhHHHHHHHhhhhhhhccCCCCc
Q 031145 83 LAKVSFGVIGLGLGISLLSYGFGAYFSIFPGSE 115 (165)
Q Consensus 83 l~k~SlGsLgl~vG~iLtvvGf~AYft~~p~an 115 (165)
.+|+..|-....+|+.|...|-.|||++..++|
T Consensus 6 kkklg~gia~aalg~~liggGT~AyFSD~ets~ 38 (199)
T PF12389_consen 6 KKKLGMGIASAALGAALIGGGTFAYFSDTETSN 38 (199)
T ss_pred HHHHHHHHHHHHHHHHHhccccEEEEecccccC
Confidence 456666777777788887778999999876543
No 12
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=48.34 E-value=24 Score=27.26 Aligned_cols=28 Identities=21% Similarity=0.356 Sum_probs=23.8
Q ss_pred eecccchhhhHhHHHHHHHhhhhhhhcc
Q 031145 83 LAKVSFGVIGLGLGISLLSYGFGAYFSI 110 (165)
Q Consensus 83 l~k~SlGsLgl~vG~iLtvvGf~AYft~ 110 (165)
.+.+-++.+++++|.+|+++|+.-+++.
T Consensus 41 wK~I~la~~Lli~G~~li~~g~l~~~~~ 68 (115)
T PF05915_consen 41 WKSIALAVFLLIFGTVLIIIGLLLFFGH 68 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5667789999999999999998887764
No 13
>PRK09546 zntB zinc transporter; Reviewed
Probab=44.06 E-value=33 Score=29.14 Aligned_cols=12 Identities=17% Similarity=0.631 Sum_probs=8.5
Q ss_pred hhhhHHHHHhhh
Q 031145 123 YGFPLAVIGMAL 134 (165)
Q Consensus 123 YGiPIlLgGLAL 134 (165)
||+|+.++.+++
T Consensus 298 ~gy~~~l~im~~ 309 (324)
T PRK09546 298 FGFSIFCLLLVV 309 (324)
T ss_pred chHHHHHHHHHH
Confidence 788877776653
No 14
>TIGR01168 YSIRK_signal Gram-positive signal peptide, YSIRK family. Many surface proteins found in Streptococcus, Staphylococcus, and related lineages share apparently homologous signal sequences. A motif resembling [YF]SIRKxxxGxxS[VIA] appears at the start of the transmembrane domain. The GxxS motif appears perfectly conserved, suggesting a specific function and not just homology. There is a strong correlation between proteins carrying this region at the N-terminus and those carrying the Gram-positive anchor domain with the LPXTG sortase processing site at the C-terminus.
Probab=42.74 E-value=25 Score=22.74 Aligned_cols=25 Identities=20% Similarity=0.398 Sum_probs=20.0
Q ss_pred CCceeecccchhhhHhHHHHHHHhh
Q 031145 79 DEFTLAKVSFGVIGLGLGISLLSYG 103 (165)
Q Consensus 79 ~~f~l~k~SlGsLgl~vG~iLtvvG 103 (165)
..|.+||+|.|..-..+|.++...+
T Consensus 9 ~~fsiRK~svG~aSv~ig~~~~~~~ 33 (39)
T TIGR01168 9 QRYSIRKLSVGVASVLVASLFFGGG 33 (39)
T ss_pred heeeeeeechhHhHHHHHHHHHhhh
Confidence 5799999999998888888555444
No 15
>PF11384 DUF3188: Protein of unknown function (DUF3188); InterPro: IPR021524 This bacterial family of proteins has no known function.
Probab=40.20 E-value=33 Score=23.20 Aligned_cols=36 Identities=22% Similarity=0.180 Sum_probs=19.9
Q ss_pred HHHHHHhhhhhhhccCCCC-cchhhhhhhhhhHHHHH
Q 031145 96 GISLLSYGFGAYFSIFPGS-EWSALMLTYGFPLAVIG 131 (165)
Q Consensus 96 G~iLtvvGf~AYft~~p~a-nLSl~gfFYGiPIlLgG 131 (165)
|..|.++|+++.++.+++. .-+++.+.-|+-+.+.|
T Consensus 3 ap~Li~iglv~l~~r~~~~~i~~lP~~~~Gi~Lii~g 39 (49)
T PF11384_consen 3 APFLILIGLVALFSRNGSDRIQALPAILIGIGLIISG 39 (49)
T ss_pred hhHHHHHHHHHHHhcCCccchhccHHHHHhHHHHhhh
Confidence 4556777888877776663 23444444444444333
No 16
>PF09656 PGPGW: Putative transmembrane protein (PGPGW); InterPro: IPR019099 This entry represents proteins that contain three predicted transmembrane helices and an unusual motif with consensus sequence PGPGW.
Probab=38.94 E-value=45 Score=23.00 Aligned_cols=41 Identities=22% Similarity=0.103 Sum_probs=28.8
Q ss_pred hhHhHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHHHHHhhhhccccCCC
Q 031145 91 IGLGLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLAVIGMALKYAELKPV 142 (165)
Q Consensus 91 Lgl~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIlLgGLALK~AELkPv 142 (165)
+..++|.++.+.|++.-+.--| |++++++|+++=+.|.+-+
T Consensus 3 ~v~v~G~~lv~~Gii~~~lPGp-----------G~l~i~~GL~iLa~ef~wA 43 (53)
T PF09656_consen 3 GVGVLGWVLVVAGIIMLPLPGP-----------GLLVIFLGLAILATEFPWA 43 (53)
T ss_pred hhhhHHHHHHHHHHHhhcCCCC-----------cHHHHHHHHHHHHHhhHHH
Confidence 3567899999999887644322 4667778888877775543
No 17
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=38.08 E-value=40 Score=26.25 Aligned_cols=16 Identities=44% Similarity=0.561 Sum_probs=8.8
Q ss_pred hhHhHHHHHHHhhhhh
Q 031145 91 IGLGLGISLLSYGFGA 106 (165)
Q Consensus 91 Lgl~vG~iLtvvGf~A 106 (165)
+..++|.+|.+.|.++
T Consensus 10 ~~iilgilli~~gI~~ 25 (191)
T PF04156_consen 10 ILIILGILLIASGIAA 25 (191)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445566655555555
No 18
>PF00361 Oxidored_q1: NADH-Ubiquinone/plastoquinone (complex I), various chains; InterPro: IPR001750 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This domain is found in the NADH:ubiquinone oxidoreductase (complex I) and NADH-plastoquinone oxidoreductase [].; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0042773 ATP synthesis coupled electron transport, 0055114 oxidation-reduction process; PDB: 3RKO_D.
Probab=36.85 E-value=58 Score=26.42 Aligned_cols=47 Identities=21% Similarity=0.270 Sum_probs=28.7
Q ss_pred hHhHHHHHHHhhhhhhhccCCCCcchh--------hhhhhhhhHHHHHhhhhccc
Q 031145 92 GLGLGISLLSYGFGAYFSIFPGSEWSA--------LMLTYGFPLAVIGMALKYAE 138 (165)
Q Consensus 92 gl~vG~iLtvvGf~AYft~~p~anLSl--------~gfFYGiPIlLgGLALK~AE 138 (165)
...+|.++...|+.-+.....+.|.+. .+..+++-+++.|+.+|.+-
T Consensus 41 ~~~~~s~~ll~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~g~~iKlg~ 95 (270)
T PF00361_consen 41 IQSLGSVLLLLGIILLYAFTGSLNFSDLFLSPFSNSTSPLGLILILLGFLIKLGL 95 (270)
T ss_dssp HHHHHHHHHHHHHHHHHHHTS--CCCHHHH-TT-TCHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHhhhhcccCCccccccccccccccccccccccccccccccccc
Confidence 345676777777665553322322222 33467999999999999764
No 19
>PF12666 PrgI: PrgI family protein; InterPro: IPR024414 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 116 and 146 amino acids in length. PrgI is found encoded on plasmids of Enterococcus faecalis, its function is not known.
Probab=36.29 E-value=45 Score=23.45 Aligned_cols=55 Identities=13% Similarity=0.150 Sum_probs=32.4
Q ss_pred CCCceeecccchhhhHhHHHHHHHhhhhhhhcc-CCCCcchhhhhhhhhhHHHHHhh
Q 031145 78 DDEFTLAKVSFGVIGLGLGISLLSYGFGAYFSI-FPGSEWSALMLTYGFPLAVIGMA 133 (165)
Q Consensus 78 d~~f~l~k~SlGsLgl~vG~iLtvvGf~AYft~-~p~anLSl~gfFYGiPIlLgGLA 133 (165)
+|.+... +|.-.++..+++.+..+|+...+.. .+.....++.+.-.+|+.+.|+-
T Consensus 10 e~ki~~G-lT~RQl~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~i~~~~p~~~~g~~ 65 (93)
T PF12666_consen 10 EEKIFFG-LTLRQLICLAIGALVGVGVYLLLWFFLGPDIASWIMIPIALPFAFLGFF 65 (93)
T ss_pred cchhccC-CCHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhHhh
Confidence 3433333 3777788877777777666554322 12223566666777777766664
No 20
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=36.26 E-value=63 Score=26.88 Aligned_cols=41 Identities=22% Similarity=0.206 Sum_probs=30.5
Q ss_pred HhHHHHHHHhhhhhhhccCCCC--cchhhhhhhhhhHHHHHhh
Q 031145 93 LGLGISLLSYGFGAYFSIFPGS--EWSALMLTYGFPLAVIGMA 133 (165)
Q Consensus 93 l~vG~iLtvvGf~AYft~~p~a--nLSl~gfFYGiPIlLgGLA 133 (165)
+.+.+.++..++++.|-+.+|. -||+.|.+-|.-+...++.
T Consensus 26 lai~sl~~s~llI~lFg~~~~~nf~~NllGVil~~~~~~~~l~ 68 (165)
T PF11286_consen 26 LAILSLAFSQLLIALFGGESGGNFHWNLLGVILGLLLTSALLR 68 (165)
T ss_pred HHHHHHHHHHHHHHHcCCCCCCceeeeHHHHHHHHHHHHHHHH
Confidence 3555666667778888765655 4899999999888777766
No 21
>PF07613 DUF1576: Protein of unknown function (DUF1576); InterPro: IPR011470 This small family is found in several undescribed proteins. The alignment is distinguished by the frequent occurrence of conserved glycine and aromatic residues.
Probab=34.97 E-value=30 Score=28.97 Aligned_cols=31 Identities=13% Similarity=0.127 Sum_probs=22.3
Q ss_pred HhHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHHHHHhh
Q 031145 93 LGLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLAVIGMA 133 (165)
Q Consensus 93 l~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIlLgGLA 133 (165)
-++|++++++||.++-.+.-| -+||++|..-
T Consensus 64 p~iaaiftv~GFs~FGKn~~N----------i~PI~lGv~L 94 (183)
T PF07613_consen 64 PTIAAIFTVVGFSAFGKNIKN----------IWPIILGVYL 94 (183)
T ss_pred HHHHHHHHHHHHHHcCCcHHH----------HhHHHHHHHH
Confidence 478999999999999655222 4677776653
No 22
>PF10762 DUF2583: Protein of unknown function (DUF2583) ; InterPro: IPR019698 Some members in this entry are annotated as YchH however currently no function is known.
Probab=34.67 E-value=46 Score=25.57 Aligned_cols=36 Identities=22% Similarity=0.315 Sum_probs=26.2
Q ss_pred chhhhHhHHHHHHHhhhhhh--hccCCCCcchhhhhhhhhh
Q 031145 88 FGVIGLGLGISLLSYGFGAY--FSIFPGSEWSALMLTYGFP 126 (165)
Q Consensus 88 lGsLgl~vG~iLtvvGf~AY--ft~~p~anLSl~gfFYGiP 126 (165)
+||++.++|.++.+.| ++| ++..|. |+++-|+...-
T Consensus 9 ~GN~lMglGmv~Mv~g-igysi~~~~~~--L~Lp~~~~~ga 46 (89)
T PF10762_consen 9 LGNVLMGLGMVVMVGG-IGYSILSQIPQ--LGLPQFLAHGA 46 (89)
T ss_pred HhhHHHHHhHHHHHHh-HHHHHHHhccc--CCCcHHHHhhH
Confidence 7999999999887765 566 366565 88877776543
No 23
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=32.67 E-value=53 Score=29.32 Aligned_cols=53 Identities=21% Similarity=0.389 Sum_probs=38.5
Q ss_pred eecCCCceeecccchhhhHhHHHHHHHhhhhhhhccCCCCcch-hhhhhhhhhHHH
Q 031145 75 LVPDDEFTLAKVSFGVIGLGLGISLLSYGFGAYFSIFPGSEWS-ALMLTYGFPLAV 129 (165)
Q Consensus 75 ~v~d~~f~l~k~SlGsLgl~vG~iLtvvGf~AYft~~p~anLS-l~gfFYGiPIlL 129 (165)
++|+-....+..-+|.+++.++-.+.-++|.-|.+..++ .| .-|-|=++|+++
T Consensus 200 ~~Pn~~v~~r~al~Gai~a~vl~~~~~~~f~~yv~~~~~--y~~iYGs~a~v~i~L 253 (412)
T PRK04214 200 VVPNHFVPLRHALPGALLTAVLLELVKWGFGFYLGNFQT--YQRIYGAFAAVPILL 253 (412)
T ss_pred HcCCCccchHHhHHHHHHHHHHHHHHHHHHHHHHHhccc--ccHHHHHHHHHHHHH
Confidence 456666677888899999999999999999999977654 33 334444456544
No 24
>PRK02542 photosystem I assembly protein Ycf4; Provisional
Probab=32.55 E-value=83 Score=26.85 Aligned_cols=61 Identities=20% Similarity=0.303 Sum_probs=40.0
Q ss_pred ceecCCCceeeccc---chhhhHhHHHHHHHhhhhhhhcc--CCC---Ccc-----hhhhhhhhhhHHHHHhhh
Q 031145 74 TLVPDDEFTLAKVS---FGVIGLGLGISLLSYGFGAYFSI--FPG---SEW-----SALMLTYGFPLAVIGMAL 134 (165)
Q Consensus 74 ~~v~d~~f~l~k~S---lGsLgl~vG~iLtvvGf~AYft~--~p~---anL-----Sl~gfFYGiPIlLgGLAL 134 (165)
.+..+.=---|++| .+.+++.-|.-.+.+|+-.|+.. .|- .++ -++|.|||+-=++..+=|
T Consensus 11 ~i~~~~I~GSRR~SNy~wA~i~~~G~~GFll~g~sSYl~~~Llpf~~~~~i~FiPQGivM~FYGi~gl~ls~Yl 84 (188)
T PRK02542 11 LVLEQEVLGSRRLSNYLWASMVTIGGIGFLLAGLSSYLGRNLLPVGDPSTLIFIPQGLAMGFYGVAGTLLALYL 84 (188)
T ss_pred heEEEecccccchhHHHHHHHHHhhhHHHHHhhhHHhhCcCccccCChhhCeEeCccHHHHHHHHHHHHHHHHH
Confidence 34444444456667 67777777888999999999853 221 111 367899998776666533
No 25
>COG5446 Predicted integral membrane protein [Function unknown]
Probab=32.45 E-value=2e+02 Score=25.36 Aligned_cols=57 Identities=21% Similarity=0.317 Sum_probs=39.8
Q ss_pred CCcccCCcceecCCCceeeccc-chhhhHhHHHHHHHhhhhhhhccCCCCcchhhhhhhhh
Q 031145 66 SATTSADKTLVPDDEFTLAKVS-FGVIGLGLGISLLSYGFGAYFSIFPGSEWSALMLTYGF 125 (165)
Q Consensus 66 ~~~~~~~~~~v~d~~f~l~k~S-lGsLgl~vG~iLtvvGf~AYft~~p~anLSl~gfFYGi 125 (165)
++-..+|....+.|+|+-.... -+|+++.+|-.|...|....-..+. +|- -|+|+|+
T Consensus 55 aAh~h~dEaWaPaDGfeRta~tv~~NvvtaiGfAL~L~gl~~lrg~~~--~wr-qGl~WGl 112 (233)
T COG5446 55 AAHVHDDEAWAPADGFERTASTVGGNVVTAIGFALMLAGLFTLRGPGQ--TWR-QGLFWGL 112 (233)
T ss_pred ccCcCccccCCCcchHHHHHHHhhhhHHHHHHHHHHHHHHHHhccCCc--chh-hhHHHHH
Confidence 3444567788899999754433 6899999999999999888754433 341 3566664
No 26
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=32.15 E-value=38 Score=23.71 Aligned_cols=21 Identities=14% Similarity=0.271 Sum_probs=16.6
Q ss_pred hhhhHhHHHHHHHhhhhhhhc
Q 031145 89 GVIGLGLGISLLSYGFGAYFS 109 (165)
Q Consensus 89 GsLgl~vG~iLtvvGf~AYft 109 (165)
-.+.-.+|..+.++|+++|+-
T Consensus 33 ~~ia~~~~iG~~i~G~iGf~I 53 (61)
T PRK09400 33 LLVAKVTGLGILLIGLIGFII 53 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356677888888999999973
No 27
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=31.87 E-value=37 Score=27.08 Aligned_cols=20 Identities=35% Similarity=0.341 Sum_probs=15.3
Q ss_pred hhhhHhHHHHHHHhhhhhhh
Q 031145 89 GVIGLGLGISLLSYGFGAYF 108 (165)
Q Consensus 89 GsLgl~vG~iLtvvGf~AYf 108 (165)
.++++.+|++|++++++-|.
T Consensus 119 ~~i~~~i~g~ll~i~~giy~ 138 (145)
T PF10661_consen 119 PTILLSIGGILLAICGGIYV 138 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 37888888887777777775
No 28
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=31.19 E-value=38 Score=26.39 Aligned_cols=24 Identities=21% Similarity=0.249 Sum_probs=20.8
Q ss_pred ecccchhhhHhHHHHHHHhhhhhh
Q 031145 84 AKVSFGVIGLGLGISLLSYGFGAY 107 (165)
Q Consensus 84 ~k~SlGsLgl~vG~iLtvvGf~AY 107 (165)
.++.-.|+++++|+..+++|..+|
T Consensus 45 ~~~R~rN~~Tgl~L~~~v~gIY~Y 68 (100)
T PF09813_consen 45 QRRRRRNLLTGLALGAFVVGIYAY 68 (100)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHhh
Confidence 345568999999999999999999
No 29
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=31.15 E-value=72 Score=24.59 Aligned_cols=21 Identities=10% Similarity=0.118 Sum_probs=17.1
Q ss_pred hhhhhhhhhhHHHHHhhhhcc
Q 031145 117 SALMLTYGFPLAVIGMALKYA 137 (165)
Q Consensus 117 Sl~gfFYGiPIlLgGLALK~A 137 (165)
=.+.-|.|+=++++++|++.+
T Consensus 36 W~Vl~F~glev~~l~~a~~~~ 56 (140)
T PF10003_consen 36 WPVLPFAGLEVLALWYAFRRN 56 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345567999999999999865
No 30
>PRK10535 macrolide transporter ATP-binding /permease protein; Provisional
Probab=30.54 E-value=50 Score=31.04 Aligned_cols=11 Identities=45% Similarity=0.498 Sum_probs=10.4
Q ss_pred hhhccccCCCC
Q 031145 133 ALKYAELKPVP 143 (165)
Q Consensus 133 ALK~AELkPvp 143 (165)
|.|+|.|+|++
T Consensus 633 A~rAa~l~Pie 643 (648)
T PRK10535 633 ARNAARLDPVD 643 (648)
T ss_pred HHHHhCCCHHH
Confidence 89999999998
No 31
>CHL00036 ycf4 photosystem I assembly protein Ycf4
Probab=30.27 E-value=72 Score=27.10 Aligned_cols=51 Identities=20% Similarity=0.252 Sum_probs=35.2
Q ss_pred eeccc---chhhhHhHHHHHHHhhhhhhhccC--CC---Ccc-----hhhhhhhhhhHHHHHhh
Q 031145 83 LAKVS---FGVIGLGLGISLLSYGFGAYFSIF--PG---SEW-----SALMLTYGFPLAVIGMA 133 (165)
Q Consensus 83 l~k~S---lGsLgl~vG~iLtvvGf~AYft~~--p~---anL-----Sl~gfFYGiPIlLgGLA 133 (165)
-|++| .+.+++.-|.-.+.+|+-.|+..+ |- .++ -++|.|||+-=++..+=
T Consensus 16 SRR~SNy~wA~i~~~G~~GFll~g~SSYl~~~Llpf~~~~~i~FiPQGivM~FYGi~gl~ls~Y 79 (184)
T CHL00036 16 SRRISNFFWAFILFLGSLGFLLVGISSYLGKNLIPFLPSQQILFFPQGIVMCFYGIAGLFISSY 79 (184)
T ss_pred ccchhHHHHHHHHHhhhHHHHHhhhHHhhCcCccccCChhhCeEeCccHHHHHHHHHHHHHHHH
Confidence 35555 677777788889999999998532 21 112 36799999876666553
No 32
>TIGR00765 yihY_not_rbn YihY family protein (not ribonuclease BN). Members of this subfamily include the largely uncharacterized BrkB (Bordetella resist killing by serum B) from Bordetella pertussis. Some members have an additional C-terminal domain. Paralogs from E. coli (yhjD) and Mycobactrium tuberculosis (Rv3335c) are part of a smaller, related subfamily that form their own cluster.
Probab=29.96 E-value=53 Score=27.02 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=32.7
Q ss_pred eecCCCceeecccchhhhHhHHHHHHHhhhhhhhccCCC
Q 031145 75 LVPDDEFTLAKVSFGVIGLGLGISLLSYGFGAYFSIFPG 113 (165)
Q Consensus 75 ~v~d~~f~l~k~SlGsLgl~vG~iLtvvGf~AYft~~p~ 113 (165)
+.|+-....+...+|.+.+.+|-.+.-.+|.-|.+..++
T Consensus 183 ~~P~~~~~~r~~~~Ga~~a~v~w~~~~~~f~~Yv~~~~~ 221 (259)
T TIGR00765 183 IVPNKKVKHRHAFVGAFFAAVLFELAKWLFTFYVSTFAT 221 (259)
T ss_pred hcCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 456666677888999999999999999999999876544
No 33
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=29.55 E-value=44 Score=23.55 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=16.4
Q ss_pred hhhhHhHHHHHHHhhhhhhhc
Q 031145 89 GVIGLGLGISLLSYGFGAYFS 109 (165)
Q Consensus 89 GsLgl~vG~iLtvvGf~AYft 109 (165)
-.+.-..|....++||++|+-
T Consensus 29 ~~iak~t~iG~~i~G~IGf~I 49 (61)
T TIGR00327 29 LKVAKVTGIGIIIVGIIGYII 49 (61)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356667788888999999973
No 34
>PF11127 DUF2892: Protein of unknown function (DUF2892); InterPro: IPR021309 This family is conserved in bacteria. The function is not known.
Probab=29.53 E-value=90 Score=20.76 Aligned_cols=35 Identities=34% Similarity=0.542 Sum_probs=23.4
Q ss_pred HhHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHHHHHh
Q 031145 93 LGLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLAVIGM 132 (165)
Q Consensus 93 l~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIlLgGL 132 (165)
.++|.++++.|+..+... +..+..+.|+-++.-|+
T Consensus 14 ~~~G~~l~~~~~~~~~~~-----~~~~~~~~g~~ll~~g~ 48 (66)
T PF11127_consen 14 IIIGIVLLALGLLGLFGS-----WGWLLGFVGAMLLVTGI 48 (66)
T ss_pred HHHHHHHHHHHHHhcccc-----hHHHHHHHHHHHHHHHH
Confidence 366777777777666433 26777778877776665
No 35
>PF08452 DNAP_B_exo_N: DNA polymerase family B exonuclease domain, N-terminal; InterPro: IPR013660 This domain is found in viral DNA polymerases to the N terminus of DNA polymerase family B exonuclease domains (IPR006133 from INTERPRO). ; GO: 0003887 DNA-directed DNA polymerase activity
Probab=28.11 E-value=27 Score=20.80 Aligned_cols=17 Identities=29% Similarity=0.626 Sum_probs=14.1
Q ss_pred cceeeeecccCCceeec
Q 031145 8 RATNLFSQHQDDRYLGL 24 (165)
Q Consensus 8 ~~~~~~~~~~~~~~~~~ 24 (165)
+--|.|.++.|.|||-|
T Consensus 4 kCiNWFE~~ge~r~lyL 20 (22)
T PF08452_consen 4 KCINWFESRGEERFLYL 20 (22)
T ss_pred EEeehhhhCCceeEEEE
Confidence 34588999999999876
No 36
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=26.90 E-value=52 Score=27.34 Aligned_cols=43 Identities=19% Similarity=0.227 Sum_probs=27.6
Q ss_pred ecccchhhhHhHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHHH
Q 031145 84 AKVSFGVIGLGLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLAV 129 (165)
Q Consensus 84 ~k~SlGsLgl~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIlL 129 (165)
...|+|.+.+.+-++++++.|+ +.+|...+-...+.|++-++.
T Consensus 73 sR~~i~e~fmP~alv~lv~~~v---~~~~~~~~~~~~~~~~~~~~~ 115 (170)
T PF11241_consen 73 SRRNIGEFFMPVALVLLVLSFV---VPSPQVQLYVTLAMYVLLLLV 115 (170)
T ss_pred cccchHHHHHHHHHHHHHHHHH---cccHHHHHHHHHHHHHHHHHH
Confidence 4578999999999999999998 233332222333445554443
No 37
>TIGR03068 srtB_sig_NPQTN sortase B signal domain, NPQTN class. This model represents one of the boutique (rare) sortase signals, recognized by sortase B (SrtB) rather than by the housekeeping-type SrtA class sortase. This sequence, beginning NPQTN, shows little similarity to several other SrtB substrates.
Probab=26.83 E-value=55 Score=21.15 Aligned_cols=19 Identities=21% Similarity=0.349 Sum_probs=14.3
Q ss_pred CCCCcchhhhhhhhhhHHH
Q 031145 111 FPGSEWSALMLTYGFPLAV 129 (165)
Q Consensus 111 ~p~anLSl~gfFYGiPIlL 129 (165)
||-++=+-+++.|+||+.-
T Consensus 1 NPQTs~gtp~y~y~Ip~v~ 19 (33)
T TIGR03068 1 NPQTNAGTPAYIYAIPVAS 19 (33)
T ss_pred CCCCCCCCcchhhHHHHHH
Confidence 4545566789999999865
No 38
>PF06168 DUF981: Protein of unknown function (DUF981); InterPro: IPR009324 This is a family of uncharacterised proteins found in bacteria and archaea.
Probab=26.77 E-value=69 Score=26.97 Aligned_cols=15 Identities=47% Similarity=0.731 Sum_probs=6.5
Q ss_pred HhHHHHHHHhhhhhh
Q 031145 93 LGLGISLLSYGFGAY 107 (165)
Q Consensus 93 l~vG~iLtvvGf~AY 107 (165)
...|.++...|+.-|
T Consensus 78 ~lfGv~lL~~~~~l~ 92 (191)
T PF06168_consen 78 LLFGVLLLSAGLALY 92 (191)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444444
No 39
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=26.00 E-value=79 Score=25.84 Aligned_cols=14 Identities=21% Similarity=0.363 Sum_probs=7.9
Q ss_pred CCCCCCCchhhhhh
Q 031145 36 PASPPPLLASKRHR 49 (165)
Q Consensus 36 ~~s~~~~~p~~~~~ 49 (165)
+..++|.-|++++.
T Consensus 3 ~r~~~pfeP~~~~~ 16 (153)
T PF11947_consen 3 SRKRLPFEPSKKRK 16 (153)
T ss_pred CCCCCCCCCccchh
Confidence 34555666665554
No 40
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=25.43 E-value=83 Score=23.46 Aligned_cols=39 Identities=36% Similarity=0.468 Sum_probs=24.9
Q ss_pred HhHHHHHHHhhhhhhh--ccCCC------CcchhhhhhhhhhHHHHH
Q 031145 93 LGLGISLLSYGFGAYF--SIFPG------SEWSALMLTYGFPLAVIG 131 (165)
Q Consensus 93 l~vG~iLtvvGf~AYf--t~~p~------anLSl~gfFYGiPIlLgG 131 (165)
.++|.++.+.|..=|+ .-.|. .=+|.+|++||.-+..-|
T Consensus 9 ~iLgi~l~~~~~~Ly~lr~~~Pev~Rd~D~~fs~vgLl~g~IL~~~g 55 (84)
T PF07444_consen 9 YILGIILILGGLALYFLRFFRPEVSRDYDIFFSSVGLLYGLILWFQG 55 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHCcchhhhhhHHHHHHHHHHHHHHHHHh
Confidence 3456666666666665 34443 247899999998666554
No 41
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=24.51 E-value=38 Score=31.95 Aligned_cols=39 Identities=33% Similarity=0.520 Sum_probs=18.7
Q ss_pred hHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHHHHHhhhhccccC
Q 031145 94 GLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLAVIGMALKYAELK 140 (165)
Q Consensus 94 ~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIlLgGLALK~AELk 140 (165)
++|+++++.||.+.... +.|+ -|+-++++|++|=.+|++
T Consensus 262 ~iG~i~LlL~f~g~~~~--~~~~------~gllLiilG~iLiv~E~~ 300 (436)
T COG1030 262 IIGAILLLLGFYGLLFL--GINW------AGLLLIILGAILIVAEAF 300 (436)
T ss_pred HHHHHHHHHHHHHhhcc--chhH------HHHHHHHHHHHHHHHHHh
Confidence 45555666666555322 1111 233455566666555553
No 42
>PF01618 MotA_ExbB: MotA/TolQ/ExbB proton channel family MotA family only; InterPro: IPR002898 This family groups together integral membrane proteins that appear to be involved in translocation of proteins across a membrane. These proteins are probably proton channels. MotA is an essential component of the flagellar motor that uses a proton gradient to generate rotational motion in the flagellar []. ExbB is part of the TonB-dependent transduction complex. The TonB complex uses the proton gradient across the inner bacterial membrane to transport large molecules across the outer bacterial membrane.; GO: 0008565 protein transporter activity, 0006810 transport, 0016020 membrane
Probab=23.64 E-value=90 Score=23.52 Aligned_cols=17 Identities=18% Similarity=0.380 Sum_probs=8.1
Q ss_pred chhhhHhHHHHHHHhhh
Q 031145 88 FGVIGLGLGISLLSYGF 104 (165)
Q Consensus 88 lGsLgl~vG~iLtvvGf 104 (165)
+|=+||++|.+.++..+
T Consensus 68 lGLlGTv~Gmi~~f~~l 84 (139)
T PF01618_consen 68 LGLLGTVIGMIEAFQAL 84 (139)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44445555554444444
No 43
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=23.54 E-value=1.2e+02 Score=25.32 Aligned_cols=16 Identities=44% Similarity=0.796 Sum_probs=11.7
Q ss_pred hhhhhhhhHHHHHhhh
Q 031145 119 LMLTYGFPLAVIGMAL 134 (165)
Q Consensus 119 ~gfFYGiPIlLgGLAL 134 (165)
+..-||+|+.++.+++
T Consensus 288 l~~~~gy~~~l~~m~~ 303 (318)
T TIGR00383 288 LNWKYGYPAVLIVMAV 303 (318)
T ss_pred ccchhHHHHHHHHHHH
Confidence 3345899988888765
No 44
>PF06770 Arif-1: Actin-rearrangement-inducing factor (Arif-1); InterPro: IPR010639 This family consists of several Nucleopolyhedrovirus actin-rearrangement-inducing factor (Arif-1) proteins. In response to Autographa californica nuclear polyhedrosis virus (AcMNPV) infection, a sequential rearrangement of the actin cytoskeleton occurs this is induced by Arif-1 []. Arif-1 is tyrosine phosphorylated and is located at the plasma membrane as a component of the actin rearrangement-inducing complex [].
Probab=22.58 E-value=1.1e+02 Score=26.14 Aligned_cols=40 Identities=18% Similarity=0.194 Sum_probs=28.6
Q ss_pred hHHHHHHHhhhhhhh-----------ccCCCCcchhhhhhhhhhHHHHHhh
Q 031145 94 GLGISLLSYGFGAYF-----------SIFPGSEWSALMLTYGFPLAVIGMA 133 (165)
Q Consensus 94 ~vG~iLtvvGf~AYf-----------t~~p~anLSl~gfFYGiPIlLgGLA 133 (165)
++|.+.++.|..+=. ++.+--|+|.++|.||.=+++-|.-
T Consensus 7 v~g~~~~~~gl~G~~~~~yAllldye~g~~v~N~S~l~~vyG~~l~~~~~~ 57 (196)
T PF06770_consen 7 VVGSAAFVFGLMGIVDERYALLLDYENGSSVFNCSGLVFVYGPLLLLVTTW 57 (196)
T ss_pred HHHHHHHHHHhhheecCceeeEEEecCCCccEeehHHHHHHHHHHHHHHHH
Confidence 477777777776533 3333458999999999988886654
No 45
>PF14927 Neurensin: Neurensin
Probab=22.51 E-value=49 Score=26.70 Aligned_cols=21 Identities=33% Similarity=0.396 Sum_probs=17.0
Q ss_pred cccchhhhHhHHHHHHHhhhh
Q 031145 85 KVSFGVIGLGLGISLLSYGFG 105 (165)
Q Consensus 85 k~SlGsLgl~vG~iLtvvGf~ 105 (165)
.++.|++++++|.+++++|+.
T Consensus 47 ~~i~g~l~Ll~Gi~~l~vgY~ 67 (140)
T PF14927_consen 47 GFISGLLLLLLGIVALTVGYL 67 (140)
T ss_pred HHHHHHHHHHHHHHHHHhhcc
Confidence 577888888888888888764
No 46
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=22.39 E-value=99 Score=21.81 Aligned_cols=36 Identities=22% Similarity=0.022 Sum_probs=23.9
Q ss_pred hhhhHhHHHHHHHhhhhhhhccCCCCcchhhhhhhhhhHH
Q 031145 89 GVIGLGLGISLLSYGFGAYFSIFPGSEWSALMLTYGFPLA 128 (165)
Q Consensus 89 GsLgl~vG~iLtvvGf~AYft~~p~anLSl~gfFYGiPIl 128 (165)
.|+.-.+|.+++++|+..|.-...- .=++.||+-=+
T Consensus 2 iN~~Fl~~l~lliig~~~~v~~~Gf----Fd~~~ygfrr~ 37 (92)
T PF13038_consen 2 INILFLVGLILLIIGGFLFVFQSGF----FDGFSYGFRRL 37 (92)
T ss_pred chHHHHHHHHHHHHHHHHHHHhcCc----hHHHHHHHHHH
Confidence 4667789999999999998744222 33456665533
No 47
>TIGR03063 srtB_target sortase B cell surface sorting signal. Two different classes of sorting signal, both analogous to the sortase A signal LPXTG, may be recognized by the sortase SrtB. These are given as NXZTN and NPKXZ. Proteins sorted by this class of sortase are less common than the sortase A and LPXTG system. This model describes a number of cell surface protein C-terminal regions from Gram-positive bacteria that appear to be sortase B (SrtB) sorting signals.
Probab=22.09 E-value=1e+02 Score=19.20 Aligned_cols=23 Identities=26% Similarity=0.215 Sum_probs=15.6
Q ss_pred CCCcchhhhhhhhhhHHHHHhhh
Q 031145 112 PGSEWSALMLTYGFPLAVIGMAL 134 (165)
Q Consensus 112 p~anLSl~gfFYGiPIlLgGLAL 134 (165)
|-++=+..+..|++++..-|+.|
T Consensus 2 PkT~D~a~i~ly~~l~~~s~~~L 24 (29)
T TIGR03063 2 PKTGDSAQIGLYAVLFLGSGLFL 24 (29)
T ss_pred CCCccchhHHHHHHHHHHHHHHH
Confidence 33344567889999987766654
No 48
>PRK11462 putative transporter; Provisional
Probab=21.19 E-value=54 Score=28.75 Aligned_cols=14 Identities=14% Similarity=0.021 Sum_probs=7.3
Q ss_pred chhhhh-hhhhhHHH
Q 031145 116 WSALML-TYGFPLAV 129 (165)
Q Consensus 116 LSl~gf-FYGiPIlL 129 (165)
++.+.+ +-.+|+++
T Consensus 402 ~~~i~~~~~~~P~~~ 416 (460)
T PRK11462 402 ISIIIALFTIVPAIC 416 (460)
T ss_pred HHHHHHHHHHHHHHH
Confidence 454544 44567654
No 49
>PF03631 Virul_fac_BrkB: Virulence factor BrkB; InterPro: IPR017039 This entry represents the uncharacterised protein family UPF0761. It includes the E. coli gene product of yihY, and was previously thought to be a family of tRNA-processing ribonuclease BN proteins []. This has been shown to be incorrect [].; GO: 0004540 ribonuclease activity
Probab=20.09 E-value=1.4e+02 Score=24.11 Aligned_cols=38 Identities=26% Similarity=0.397 Sum_probs=31.7
Q ss_pred eecCCCceeecccchhhhHhHHHHHHHhhhhhhhccCC
Q 031145 75 LVPDDEFTLAKVSFGVIGLGLGISLLSYGFGAYFSIFP 112 (165)
Q Consensus 75 ~v~d~~f~l~k~SlGsLgl~vG~iLtvvGf~AYft~~p 112 (165)
++++.....+..-+|++.+.++..+.-++|.-|++...
T Consensus 183 ~~p~~~~~~~~~~~Ga~~~~~~~~~~~~~f~~y~~~~~ 220 (260)
T PF03631_consen 183 FLPNRRVRWRAALPGALFAAVLWFLLSYGFSLYLSYVS 220 (260)
T ss_pred hCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35666777888889999999999999999999987644
Done!